introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

6 rows where transcript_id = 4024526

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
20804999 GT-AG 0 2.5777138051765712e-05 2888 rna-XM_010299187.1 4024526 1 79449 82336 Balearica regulorum 925459 AAG|GTAAGCATGG...ACTGTTTTAATT/ACTGTTTTAATT...CTCAG|GAG 1 1 13.05
20805000 GT-AG 0 1.000000099473604e-05 6858 rna-XM_010299187.1 4024526 2 72432 79289 Balearica regulorum 925459 TAG|GTAAGTACAG...CATTTTTTAGTT/GCTTTTTTCATT...CACAG|GAC 1 1 25.55
20805001 GT-AG 0 0.0032689628115606 447 rna-XM_010299187.1 4024526 3 71740 72186 Balearica regulorum 925459 CAG|GTATGATTTC...TTGTTCTTATTC/TTTGTTCTTATT...TGCAG|ATC 0 1 44.811
20805002 GT-AG 0 0.0001239840867507 4287 rna-XM_010299187.1 4024526 4 67293 71579 Balearica regulorum 925459 TTG|GTAATTCTTC...TTTTTCTTTGTT/ATTCTTGTCAAA...CACAG|ATA 1 1 57.39
20805003 GT-AG 0 2.4053500281890508e-05 2865 rna-XM_010299187.1 4024526 5 64258 67122 Balearica regulorum 925459 CAG|GTATGAAATA...ATGGTTTTGATC/ATGGTTTTGATC...AACAG|GTG 0 1 70.755
20805004 GT-AG 0 0.0001178892671261 2765 rna-XM_010299187.1 4024526 6 61322 64086 Balearica regulorum 925459 CAG|GTACAATTTA...TTTTTCTTCCCC/TCCTCCTCCATT...GAAAG|GTG 0 1 84.198

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);